Multiple sequence alignment - TraesCS4D01G073000

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS4D01G073000 chr4D 100.000 3326 0 0 1 3326 47661361 47658036 0.000000e+00 6143.0
1 TraesCS4D01G073000 chr4D 94.534 494 26 1 2831 3324 162092868 162092376 0.000000e+00 761.0
2 TraesCS4D01G073000 chr4A 92.870 2847 133 26 1 2834 550081622 550084411 0.000000e+00 4069.0
3 TraesCS4D01G073000 chr4B 94.252 2140 78 17 708 2835 69891677 69889571 0.000000e+00 3229.0
4 TraesCS4D01G073000 chr4B 91.837 196 11 4 416 609 69893785 69893593 5.470000e-68 268.0
5 TraesCS4D01G073000 chr2D 95.335 493 18 4 2834 3324 278369744 278370233 0.000000e+00 778.0
6 TraesCS4D01G073000 chr2D 95.607 478 15 6 2818 3292 551426513 551426039 0.000000e+00 761.0
7 TraesCS4D01G073000 chr3B 94.990 499 13 7 2831 3324 532212179 532211688 0.000000e+00 773.0
8 TraesCS4D01G073000 chr5B 94.153 496 24 4 2832 3324 511016854 511017347 0.000000e+00 750.0
9 TraesCS4D01G073000 chr5B 93.890 491 27 3 2832 3320 277978126 277977637 0.000000e+00 737.0
10 TraesCS4D01G073000 chr2A 94.628 484 18 5 2832 3314 452784392 452783916 0.000000e+00 743.0
11 TraesCS4D01G073000 chrUn 93.890 491 27 3 2832 3320 66726276 66725787 0.000000e+00 737.0
12 TraesCS4D01G073000 chrUn 93.890 491 27 3 2832 3320 66728395 66727906 0.000000e+00 737.0
13 TraesCS4D01G073000 chr3D 79.787 94 19 0 2710 2803 538852943 538853036 5.950000e-08 69.4


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4D01G073000 chr4D 47658036 47661361 3325 True 6143.0 6143 100.0000 1 3326 1 chr4D.!!$R1 3325
1 TraesCS4D01G073000 chr4A 550081622 550084411 2789 False 4069.0 4069 92.8700 1 2834 1 chr4A.!!$F1 2833
2 TraesCS4D01G073000 chr4B 69889571 69893785 4214 True 1748.5 3229 93.0445 416 2835 2 chr4B.!!$R1 2419
3 TraesCS4D01G073000 chrUn 66725787 66728395 2608 True 737.0 737 93.8900 2832 3320 2 chrUn.!!$R1 488

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
333 335 0.026544 CTCGCCGAGTCGTCTTCTAC 59.973 60.0 12.31 0.0 0.00 2.59 F
614 622 0.250989 CCTGTTAAGGGTTCCCGCAA 60.251 55.0 1.91 0.0 40.27 4.85 F
1385 3245 0.886490 AACTGCAAGCACGGGAAGAG 60.886 55.0 0.00 0.0 37.60 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1797 3657 1.202580 GCGAGGGTTATGCTCATGTCT 60.203 52.381 0.00 0.0 0.0 3.41 R
1842 3702 1.528542 ATAGCCGAGTAGGAGCGCA 60.529 57.895 11.47 0.0 45.0 6.09 R
3130 5000 0.174845 CGTACGAAGAGATGGCCCAA 59.825 55.000 10.44 0.0 0.0 4.12 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 56 7.651304 CACTATCTAAGCAAGAGACATTCGATT 59.349 37.037 0.00 0.00 37.74 3.34
93 94 3.243401 ACAAGGAAAACAATCAACGGAGC 60.243 43.478 0.00 0.00 0.00 4.70
98 99 4.438744 GGAAAACAATCAACGGAGCATAGG 60.439 45.833 0.00 0.00 0.00 2.57
99 100 3.627395 AACAATCAACGGAGCATAGGA 57.373 42.857 0.00 0.00 0.00 2.94
100 101 3.627395 ACAATCAACGGAGCATAGGAA 57.373 42.857 0.00 0.00 0.00 3.36
101 102 3.950397 ACAATCAACGGAGCATAGGAAA 58.050 40.909 0.00 0.00 0.00 3.13
102 103 4.331968 ACAATCAACGGAGCATAGGAAAA 58.668 39.130 0.00 0.00 0.00 2.29
103 104 4.396166 ACAATCAACGGAGCATAGGAAAAG 59.604 41.667 0.00 0.00 0.00 2.27
104 105 2.985896 TCAACGGAGCATAGGAAAAGG 58.014 47.619 0.00 0.00 0.00 3.11
105 106 2.569853 TCAACGGAGCATAGGAAAAGGA 59.430 45.455 0.00 0.00 0.00 3.36
106 107 2.678336 CAACGGAGCATAGGAAAAGGAC 59.322 50.000 0.00 0.00 0.00 3.85
107 108 2.188817 ACGGAGCATAGGAAAAGGACT 58.811 47.619 0.00 0.00 0.00 3.85
108 109 3.371965 ACGGAGCATAGGAAAAGGACTA 58.628 45.455 0.00 0.00 0.00 2.59
109 110 3.773119 ACGGAGCATAGGAAAAGGACTAA 59.227 43.478 0.00 0.00 0.00 2.24
110 111 4.224370 ACGGAGCATAGGAAAAGGACTAAA 59.776 41.667 0.00 0.00 0.00 1.85
111 112 5.104485 ACGGAGCATAGGAAAAGGACTAAAT 60.104 40.000 0.00 0.00 0.00 1.40
112 113 5.237344 CGGAGCATAGGAAAAGGACTAAATG 59.763 44.000 0.00 0.00 0.00 2.32
113 114 6.122964 GGAGCATAGGAAAAGGACTAAATGT 58.877 40.000 0.00 0.00 0.00 2.71
114 115 6.038714 GGAGCATAGGAAAAGGACTAAATGTG 59.961 42.308 0.00 0.00 0.00 3.21
115 116 6.485171 AGCATAGGAAAAGGACTAAATGTGT 58.515 36.000 0.00 0.00 0.00 3.72
116 117 6.948309 AGCATAGGAAAAGGACTAAATGTGTT 59.052 34.615 0.00 0.00 0.00 3.32
155 156 0.747852 TGTACGCCCTAATGCATCGA 59.252 50.000 11.22 0.00 0.00 3.59
188 189 8.714906 ACCTTCTATAACCAGTGCTACATAAAT 58.285 33.333 0.00 0.00 0.00 1.40
189 190 8.993121 CCTTCTATAACCAGTGCTACATAAATG 58.007 37.037 0.00 0.00 0.00 2.32
191 192 8.029782 TCTATAACCAGTGCTACATAAATGGT 57.970 34.615 0.00 0.00 42.70 3.55
192 193 9.150028 TCTATAACCAGTGCTACATAAATGGTA 57.850 33.333 0.00 0.00 40.07 3.25
193 194 9.204570 CTATAACCAGTGCTACATAAATGGTAC 57.795 37.037 0.00 0.00 40.07 3.34
195 196 3.807622 CCAGTGCTACATAAATGGTACCG 59.192 47.826 7.57 0.00 0.00 4.02
300 302 4.183865 TCACGAGCTTCATCATAACTTGG 58.816 43.478 0.00 0.00 0.00 3.61
311 313 0.831307 ATAACTTGGCGAGTCTCCCC 59.169 55.000 8.08 0.00 37.72 4.81
333 335 0.026544 CTCGCCGAGTCGTCTTCTAC 59.973 60.000 12.31 0.00 0.00 2.59
337 339 1.728502 GCCGAGTCGTCTTCTACACAC 60.729 57.143 12.31 0.00 0.00 3.82
355 357 6.605471 ACACACTGTAATCCTCTGTATTCA 57.395 37.500 0.00 0.00 0.00 2.57
356 358 6.398918 ACACACTGTAATCCTCTGTATTCAC 58.601 40.000 0.00 0.00 0.00 3.18
357 359 6.014584 ACACACTGTAATCCTCTGTATTCACA 60.015 38.462 0.00 0.00 0.00 3.58
358 360 7.044181 CACACTGTAATCCTCTGTATTCACAT 58.956 38.462 0.00 0.00 33.14 3.21
359 361 7.010830 CACACTGTAATCCTCTGTATTCACATG 59.989 40.741 0.00 0.00 33.14 3.21
360 362 6.018425 CACTGTAATCCTCTGTATTCACATGC 60.018 42.308 0.00 0.00 33.14 4.06
361 363 5.988287 TGTAATCCTCTGTATTCACATGCA 58.012 37.500 0.00 0.00 33.14 3.96
362 364 6.594744 TGTAATCCTCTGTATTCACATGCAT 58.405 36.000 0.00 0.00 33.14 3.96
363 365 6.484308 TGTAATCCTCTGTATTCACATGCATG 59.516 38.462 25.09 25.09 33.14 4.06
364 366 3.208594 TCCTCTGTATTCACATGCATGC 58.791 45.455 26.53 11.82 33.14 4.06
384 386 3.511146 TGCTTTATCTTTTTGGAGGCCAG 59.489 43.478 5.01 0.00 33.81 4.85
399 401 4.417437 GAGGCCAGAACCTAGGTATATCA 58.583 47.826 16.67 0.00 41.32 2.15
430 432 2.293399 GTGTTGTGTGTTCAAGATCCCC 59.707 50.000 0.00 0.00 0.00 4.81
555 563 8.715842 AGAGGGGGTAATTTCTTAGAAATACTC 58.284 37.037 19.00 15.79 0.00 2.59
609 617 3.499537 CGTGTTAACCTGTTAAGGGTTCC 59.500 47.826 13.94 8.58 42.81 3.62
610 618 3.822735 GTGTTAACCTGTTAAGGGTTCCC 59.177 47.826 13.94 0.00 42.81 3.97
611 619 3.076621 GTTAACCTGTTAAGGGTTCCCG 58.923 50.000 13.94 0.00 42.81 5.14
613 621 1.377229 CCTGTTAAGGGTTCCCGCA 59.623 57.895 1.91 0.78 40.27 5.69
614 622 0.250989 CCTGTTAAGGGTTCCCGCAA 60.251 55.000 1.91 0.00 40.27 4.85
615 623 1.611519 CTGTTAAGGGTTCCCGCAAA 58.388 50.000 1.91 0.00 0.00 3.68
616 624 1.957877 CTGTTAAGGGTTCCCGCAAAA 59.042 47.619 1.91 0.00 0.00 2.44
617 625 2.362717 CTGTTAAGGGTTCCCGCAAAAA 59.637 45.455 1.91 0.00 0.00 1.94
664 672 6.019156 CACACACACACTTTGTTTTTGTTTCT 60.019 34.615 0.00 0.00 35.67 2.52
787 2639 5.277634 CGTAACCGACCACTTTTCTCATTTT 60.278 40.000 0.00 0.00 35.63 1.82
903 2755 2.447250 CGGCGGCTACATATACATACG 58.553 52.381 7.61 0.00 0.00 3.06
908 2760 4.675565 GCGGCTACATATACATACGCATAG 59.324 45.833 0.00 0.00 44.52 2.23
915 2775 3.653539 ATACATACGCATAGACCGCAA 57.346 42.857 0.00 0.00 0.00 4.85
937 2797 3.129813 ACCGCGACTGTACTGATTATTGA 59.870 43.478 8.23 0.00 0.00 2.57
941 2801 5.631096 CGCGACTGTACTGATTATTGATCAT 59.369 40.000 0.00 0.00 43.59 2.45
952 2812 5.361571 TGATTATTGATCATTGGCTGCAACT 59.638 36.000 0.50 0.00 39.83 3.16
999 2859 1.003573 ACCTCCATCTCTCCCACCC 59.996 63.158 0.00 0.00 0.00 4.61
1119 2979 2.974148 CACAAGGCAGCAGCGACA 60.974 61.111 0.00 0.00 43.41 4.35
1385 3245 0.886490 AACTGCAAGCACGGGAAGAG 60.886 55.000 0.00 0.00 37.60 2.85
1920 3780 1.077787 TGCAATCCCCATCACGGTC 60.078 57.895 0.00 0.00 0.00 4.79
1953 3813 4.025401 CCGCGTGTTGGCAACCTC 62.025 66.667 26.31 17.83 0.00 3.85
1998 3858 3.281240 GGCGTCAAGGTACTCCGA 58.719 61.111 0.00 0.00 38.49 4.55
2079 3939 2.582978 GTTCTGGGAGGGCGGTAC 59.417 66.667 0.00 0.00 0.00 3.34
2213 4073 3.970640 CAGCTCCTAAAGATCCCTAAGGT 59.029 47.826 0.00 0.00 31.19 3.50
2217 4077 4.213513 TCCTAAAGATCCCTAAGGTCGAC 58.786 47.826 7.13 7.13 31.19 4.20
2387 4251 3.730761 CACTGCAGCCGCCTCAAC 61.731 66.667 15.27 0.00 37.32 3.18
2401 4265 4.546570 CGCCTCAACGAATAGTGATATGA 58.453 43.478 0.00 0.00 34.06 2.15
2402 4266 5.164233 CGCCTCAACGAATAGTGATATGAT 58.836 41.667 0.00 0.00 34.06 2.45
2403 4267 5.287274 CGCCTCAACGAATAGTGATATGATC 59.713 44.000 0.00 0.00 34.06 2.92
2404 4268 5.287274 GCCTCAACGAATAGTGATATGATCG 59.713 44.000 0.00 0.00 36.45 3.69
2445 4309 1.479323 GCGCACCTATATAATCGGGGA 59.521 52.381 0.30 0.00 0.00 4.81
2446 4310 2.102588 GCGCACCTATATAATCGGGGAT 59.897 50.000 0.30 0.00 0.00 3.85
2447 4311 3.717707 CGCACCTATATAATCGGGGATG 58.282 50.000 0.00 0.00 0.00 3.51
2448 4312 3.467803 GCACCTATATAATCGGGGATGC 58.532 50.000 0.00 0.00 0.00 3.91
2497 4361 4.659529 TCCTCCAGATCGGATGTATACT 57.340 45.455 4.17 0.00 45.19 2.12
2678 4545 6.860080 TCGGACTCATTGGTAAGTTTACTAG 58.140 40.000 2.40 0.00 34.16 2.57
2733 4600 8.275040 TCTTTTTAGCCTTAAATAGCTGGAGAT 58.725 33.333 0.00 0.00 40.28 2.75
2747 4614 9.804977 AATAGCTGGAGATAATGCTCTAAAAAT 57.195 29.630 0.00 0.00 37.02 1.82
2809 4678 9.646427 TTACCATCATAAATGTTAAAACAAGGC 57.354 29.630 0.00 0.00 43.03 4.35
2924 4793 0.038892 CAACAACATCTGGTGCCAGC 60.039 55.000 13.12 0.00 43.31 4.85
2965 4834 9.182933 GTAGTACTACATTAAGAAGCATGCTAC 57.817 37.037 23.00 10.45 36.15 3.58
2999 4868 4.985538 TTTGGTGTGGTTTTTGTACGAT 57.014 36.364 0.00 0.00 0.00 3.73
3005 4874 5.627780 GGTGTGGTTTTTGTACGATGATTTC 59.372 40.000 0.00 0.00 0.00 2.17
3085 4955 4.939509 AGCAATGCTTGAAATTTGCATC 57.060 36.364 13.14 4.46 45.29 3.91
3130 5000 8.774890 ATAAAAGGGTTTTGTTAAACGTGTTT 57.225 26.923 3.21 3.21 43.68 2.83
3137 5007 1.822990 TGTTAAACGTGTTTTGGGCCA 59.177 42.857 0.00 0.00 34.23 5.36
3148 5018 2.396590 TTTGGGCCATCTCTTCGTAC 57.603 50.000 7.26 0.00 0.00 3.67
3154 5024 1.469251 GCCATCTCTTCGTACGCTTGA 60.469 52.381 11.24 7.39 0.00 3.02
3181 5051 9.307121 AGATCAATAAAAGAATGTCTACGTCTG 57.693 33.333 0.00 0.00 0.00 3.51
3201 5071 0.109412 AGCGAAACGACCCTAGTTCG 60.109 55.000 8.96 8.96 0.00 3.95
3240 5110 0.035439 AAGCCGAATGATGGACGGTT 60.035 50.000 0.00 0.00 46.95 4.44
3241 5111 0.035439 AGCCGAATGATGGACGGTTT 60.035 50.000 0.00 0.00 46.95 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 56 3.117701 TCCTTGTCCCTTCATGTTGTTCA 60.118 43.478 0.00 0.00 0.00 3.18
93 94 8.110860 ACAACACATTTAGTCCTTTTCCTATG 57.889 34.615 0.00 0.00 0.00 2.23
111 112 9.268268 CAAAGGTAGAACTCTATTTACAACACA 57.732 33.333 0.00 0.00 0.00 3.72
112 113 9.269453 ACAAAGGTAGAACTCTATTTACAACAC 57.731 33.333 0.00 0.00 0.00 3.32
115 116 9.630098 CGTACAAAGGTAGAACTCTATTTACAA 57.370 33.333 0.00 0.00 0.00 2.41
116 117 7.756722 GCGTACAAAGGTAGAACTCTATTTACA 59.243 37.037 0.00 0.00 0.00 2.41
131 132 1.003812 TGCATTAGGGCGTACAAAGGT 59.996 47.619 0.00 0.00 36.28 3.50
155 156 5.745227 CACTGGTTATAGAAGGTTCCATGT 58.255 41.667 0.00 0.00 0.00 3.21
188 189 0.828022 CTACATTGCCCTCGGTACCA 59.172 55.000 13.54 0.00 0.00 3.25
189 190 1.117150 TCTACATTGCCCTCGGTACC 58.883 55.000 0.16 0.16 0.00 3.34
191 192 1.760613 CCTTCTACATTGCCCTCGGTA 59.239 52.381 0.00 0.00 0.00 4.02
192 193 0.541863 CCTTCTACATTGCCCTCGGT 59.458 55.000 0.00 0.00 0.00 4.69
193 194 0.179045 CCCTTCTACATTGCCCTCGG 60.179 60.000 0.00 0.00 0.00 4.63
195 196 2.644676 GTTCCCTTCTACATTGCCCTC 58.355 52.381 0.00 0.00 0.00 4.30
318 320 1.805345 AGTGTGTAGAAGACGACTCGG 59.195 52.381 2.98 0.00 0.00 4.63
319 321 2.223611 ACAGTGTGTAGAAGACGACTCG 59.776 50.000 0.00 0.00 0.00 4.18
324 326 5.124138 AGAGGATTACAGTGTGTAGAAGACG 59.876 44.000 5.88 0.00 33.92 4.18
328 330 7.956328 ATACAGAGGATTACAGTGTGTAGAA 57.044 36.000 5.88 0.00 33.92 2.10
333 335 6.398095 TGTGAATACAGAGGATTACAGTGTG 58.602 40.000 5.88 0.00 31.91 3.82
337 339 6.051074 TGCATGTGAATACAGAGGATTACAG 58.949 40.000 0.00 0.00 40.79 2.74
355 357 6.040209 TCCAAAAAGATAAAGCATGCATGT 57.960 33.333 26.79 10.85 0.00 3.21
356 358 5.522460 CCTCCAAAAAGATAAAGCATGCATG 59.478 40.000 22.70 22.70 0.00 4.06
357 359 5.667466 CCTCCAAAAAGATAAAGCATGCAT 58.333 37.500 21.98 4.57 0.00 3.96
358 360 4.621274 GCCTCCAAAAAGATAAAGCATGCA 60.621 41.667 21.98 0.00 0.00 3.96
359 361 3.867493 GCCTCCAAAAAGATAAAGCATGC 59.133 43.478 10.51 10.51 0.00 4.06
360 362 4.081531 TGGCCTCCAAAAAGATAAAGCATG 60.082 41.667 3.32 0.00 0.00 4.06
361 363 4.095946 TGGCCTCCAAAAAGATAAAGCAT 58.904 39.130 3.32 0.00 0.00 3.79
362 364 3.505386 TGGCCTCCAAAAAGATAAAGCA 58.495 40.909 3.32 0.00 0.00 3.91
363 365 3.763897 TCTGGCCTCCAAAAAGATAAAGC 59.236 43.478 3.32 0.00 30.80 3.51
364 366 5.336770 GGTTCTGGCCTCCAAAAAGATAAAG 60.337 44.000 3.32 0.00 30.80 1.85
407 409 3.380004 GGGATCTTGAACACACAACACAA 59.620 43.478 0.00 0.00 0.00 3.33
414 416 2.403252 ATCGGGGATCTTGAACACAC 57.597 50.000 0.00 0.00 0.00 3.82
430 432 3.599343 TGGACATCAAGTGAGGAAATCG 58.401 45.455 0.00 0.00 0.00 3.34
512 516 8.940397 ACCCCCTCTAATTTAATATGATGTTG 57.060 34.615 0.00 0.00 0.00 3.33
552 560 7.985589 TGTTAGAAAAAGGGGAAATCTAGAGT 58.014 34.615 0.00 0.00 0.00 3.24
555 563 9.692749 GTTTTGTTAGAAAAAGGGGAAATCTAG 57.307 33.333 0.00 0.00 29.93 2.43
563 571 6.698329 CGGTTAAGTTTTGTTAGAAAAAGGGG 59.302 38.462 0.00 0.00 29.93 4.79
614 622 7.094631 GTCACAACCCTTAACAGTTTCTTTTT 58.905 34.615 0.00 0.00 0.00 1.94
615 623 6.209788 TGTCACAACCCTTAACAGTTTCTTTT 59.790 34.615 0.00 0.00 0.00 2.27
616 624 5.712917 TGTCACAACCCTTAACAGTTTCTTT 59.287 36.000 0.00 0.00 0.00 2.52
617 625 5.124936 GTGTCACAACCCTTAACAGTTTCTT 59.875 40.000 0.00 0.00 0.00 2.52
618 626 4.638865 GTGTCACAACCCTTAACAGTTTCT 59.361 41.667 0.00 0.00 0.00 2.52
619 627 4.396790 TGTGTCACAACCCTTAACAGTTTC 59.603 41.667 2.31 0.00 0.00 2.78
620 628 4.157105 GTGTGTCACAACCCTTAACAGTTT 59.843 41.667 7.38 0.00 34.08 2.66
621 629 3.692593 GTGTGTCACAACCCTTAACAGTT 59.307 43.478 7.38 0.00 34.08 3.16
622 630 3.275999 GTGTGTCACAACCCTTAACAGT 58.724 45.455 7.38 0.00 34.08 3.55
623 631 3.064820 GTGTGTGTCACAACCCTTAACAG 59.935 47.826 7.38 0.00 46.28 3.16
624 632 3.011119 GTGTGTGTCACAACCCTTAACA 58.989 45.455 7.38 0.00 46.28 2.41
625 633 3.685836 GTGTGTGTCACAACCCTTAAC 57.314 47.619 7.38 0.00 46.28 2.01
649 657 8.940952 TCCATTTTACCAGAAACAAAAACAAAG 58.059 29.630 0.00 0.00 0.00 2.77
664 672 0.961358 CGCCCGGTTCCATTTTACCA 60.961 55.000 0.00 0.00 33.94 3.25
712 2564 0.106894 CGGAAAGTGGAGATAGCCCC 59.893 60.000 0.00 0.00 0.00 5.80
915 2775 3.129813 TCAATAATCAGTACAGTCGCGGT 59.870 43.478 6.13 0.00 0.00 5.68
952 2812 2.819608 GGAATGGTTTGCTGACTTGCTA 59.180 45.455 0.00 0.00 0.00 3.49
1342 3202 1.474332 TACCGCTTCGACCTTGGGTT 61.474 55.000 0.00 0.00 35.25 4.11
1794 3654 3.181471 CGAGGGTTATGCTCATGTCTTCT 60.181 47.826 0.00 0.00 0.00 2.85
1797 3657 1.202580 GCGAGGGTTATGCTCATGTCT 60.203 52.381 0.00 0.00 0.00 3.41
1842 3702 1.528542 ATAGCCGAGTAGGAGCGCA 60.529 57.895 11.47 0.00 45.00 6.09
1953 3813 1.860078 GCACCGGTTCTTGAACTCG 59.140 57.895 2.97 13.01 0.00 4.18
1998 3858 2.586635 TCGTTCGCGTTGGCAACT 60.587 55.556 26.26 0.00 42.11 3.16
2079 3939 2.125552 TTGCTCCACGGCATCTCG 60.126 61.111 0.00 0.00 42.09 4.04
2213 4073 3.891586 GAAGCTGTGGCGACGTCGA 62.892 63.158 39.74 18.94 44.37 4.20
2217 4077 2.811317 GAGGAAGCTGTGGCGACG 60.811 66.667 0.00 0.00 44.37 5.12
2387 4251 8.915654 TCACAATTTCGATCATATCACTATTCG 58.084 33.333 0.00 0.00 0.00 3.34
2401 4265 4.097437 AGCTGCATGATTCACAATTTCGAT 59.903 37.500 1.02 0.00 0.00 3.59
2402 4266 3.441222 AGCTGCATGATTCACAATTTCGA 59.559 39.130 1.02 0.00 0.00 3.71
2403 4267 3.546271 CAGCTGCATGATTCACAATTTCG 59.454 43.478 0.00 0.00 0.00 3.46
2404 4268 3.306166 GCAGCTGCATGATTCACAATTTC 59.694 43.478 33.36 0.00 41.59 2.17
2445 4309 3.840124 TCATCAGCTCTCTTCATGCAT 57.160 42.857 0.00 0.00 0.00 3.96
2446 4310 3.622166 TTCATCAGCTCTCTTCATGCA 57.378 42.857 0.00 0.00 0.00 3.96
2447 4311 3.940221 AGTTTCATCAGCTCTCTTCATGC 59.060 43.478 0.00 0.00 0.00 4.06
2448 4312 5.754406 CCTAGTTTCATCAGCTCTCTTCATG 59.246 44.000 0.00 0.00 0.00 3.07
2517 4381 4.368315 TCTTCATATGTCCCGTCGATTTG 58.632 43.478 1.90 0.00 0.00 2.32
2633 4500 9.886132 GTCCGAAATCCTAATATTGGTACATAT 57.114 33.333 0.00 0.00 39.30 1.78
2698 4565 8.706322 ATTTAAGGCTAAAAAGAGGAAGAACA 57.294 30.769 0.00 0.00 30.87 3.18
2707 4574 7.630082 TCTCCAGCTATTTAAGGCTAAAAAGA 58.370 34.615 0.00 0.00 37.00 2.52
2708 4575 7.865706 TCTCCAGCTATTTAAGGCTAAAAAG 57.134 36.000 0.00 0.00 37.00 2.27
2860 4729 5.220854 CGGTGGACACATCAATTAATTCTCC 60.221 44.000 4.69 0.00 0.00 3.71
2965 4834 6.325919 ACCACACCAAAAGTATTGTATGTG 57.674 37.500 12.37 12.37 35.82 3.21
2999 4868 8.792830 AATCAGGTTCTTTAAGATCGAAATCA 57.207 30.769 0.00 0.00 34.07 2.57
3005 4874 9.677567 TTTTGAAAATCAGGTTCTTTAAGATCG 57.322 29.630 0.00 0.00 0.00 3.69
3055 4924 7.647907 AATTTCAAGCATTGCTTCAACTTAG 57.352 32.000 20.75 8.42 46.77 2.18
3127 4997 1.534729 ACGAAGAGATGGCCCAAAAC 58.465 50.000 0.00 0.00 0.00 2.43
3130 5000 0.174845 CGTACGAAGAGATGGCCCAA 59.825 55.000 10.44 0.00 0.00 4.12
3148 5018 8.180267 AGACATTCTTTTATTGATCTTCAAGCG 58.820 33.333 0.00 0.00 40.05 4.68
3154 5024 9.877178 AGACGTAGACATTCTTTTATTGATCTT 57.123 29.630 0.00 0.00 0.00 2.40
3181 5051 1.626747 GAACTAGGGTCGTTTCGCTC 58.373 55.000 0.00 0.00 32.95 5.03
3219 5089 0.461870 CCGTCCATCATTCGGCTTCA 60.462 55.000 0.00 0.00 37.90 3.02
3220 5090 0.462047 ACCGTCCATCATTCGGCTTC 60.462 55.000 2.72 0.00 46.92 3.86
3223 5093 0.808755 AAAACCGTCCATCATTCGGC 59.191 50.000 2.72 0.00 46.92 5.54


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.